A5057337948- SARS-CoV-2 detection and testing
- Biosensors and Analytical Detection
- Advanced biosensing and bioanalysis techniques
- SARS-CoV-2 and COVID-19 Research
- Water Treatment and Disinfection
- Healthcare and Environmental Waste Management
- Fecal contamination and water quality
- Legionella and Acanthamoeba research
- Water Quality Monitoring Technologies
- Indigenous Cultures and History
- COVID-19 diagnosis using AI
- COVID-19 Clinical Research Studies
- Wastewater Treatment and Reuse
- Dental Research and COVID-19
- Wastewater Treatment and Nitrogen Removal
- Migration, Education, Indigenous Social Dynamics
- Conservation Techniques and Studies
- Indoor Air Quality and Microbial Exposure
- Infection Control and Ventilation
- Politics and Society in Latin America
- Viral gastroenteritis research and epidemiology
- Latin American history and culture
- Anthropological Studies and Insights
University of California, Berkeley
2020-2024
Gettysburg College
2023
U.S. National Science Foundation
2022-2023
Nelson Engineering (United States)
2020
Molecular Biology Consortium
2020
Berkeley College
2020
Louisiana State University
2020
Viral genome sequencing has guided our understanding of the spread and extent genetic diversity SARS-CoV-2 during COVID-19 pandemic. viral genomes are usually sequenced from nasopharyngeal swabs individual patients to track spread.
Wastewater-based epidemiology is an emerging tool for tracking the spread of SARS-CoV-2 through populations. However, many factors influence recovery and quantification from wastewater, complicating data interpretation. Specifically, these may differentially affect measured virus concentration, depending on laboratory methods used to perform test. Many laboratories add a proxy wastewater samples determine losses associated with concentration extraction viral RNA. While measuring important...
Wastewater surveillance for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA can be integrated with COVID-19 case data to inform timely pandemic response. However, more research is needed apply and develop systematic methods interpret the true SARS-CoV-2 signal from noise introduced in wastewater samples (e.g., sewer conditions, sampling extraction methods, etc.). In this study, raw was collected weekly five sewersheds one residential facility. The concentrations of were...
Wastewater-based epidemiology is an emerging tool to monitor COVID-19 infection levels by measuring the concentration of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA in wastewater. There remains a need improve wastewater extraction methods' sensitivity, speed, and reduce reliance on often expensive commercial reagents make wastewater-based more accessible. We present kit-free method, titled "Sewage, Salt, Silica SARS-CoV-2" (4S), that employs abundant affordable sodium...
Abstract Viral genome sequencing has guided our understanding of the spread and extent genetic diversity SARS-CoV-2 during COVID-19 pandemic. viral genomes are usually sequenced from nasopharyngeal swabs individual patients to track spread. Recently, RT-qPCR municipal wastewater been used quantify abundance in several regions globally. However, metatranscriptomic can be profile across infected communities. Here, we RNA directly sewage collected by utility districts San Francisco Bay Area...
Wastewater-based testing for SARS-CoV-2 is a novel tool public health monitoring, but additional laboratory capacity needed to provide routine monitoring at all locations where it has the potential be useful. Few standardization practices wastewater analysis currently exist, and quality assurance/quality control procedures may vary across laboratories. Alongside counterparts many academic institutions, we built out of University California, Berkeley. Here, detail our group’s establishment...
Legionella pneumophila was quantified during the COVID-19 pandemic in 26 buildings three countries to identify factors that influenced positivity.
Drinking water stagnation can lead to degradation of chlorine residual, bacterial growth (including opportunistic pathogens and nitrifiers), metals release from plumbing materials; however, few studies have characterized building quality communities during the extended periods that occurred COVID-19 pandemic-related closures. Additionally, despite a lack evidence-based guidance, flushing fixtures has been recommended restore quality. We aimed evaluate impacts reduced occupancy (>2...
Abstract The disease burden from Legionella spp. infections has been increasing in many industrialized countries and, despite decades of scientific advances, ranks amongst the highest for waterborne diseases. We review here several key research areas a multi-disciplinary perspective and list critical needs to address some challenges management engineered environments. These include: (1) A consideration species diversity co-occurrence, beyond pneumophila only; (2) An assessment their...
ABSTRACT Wastewater-based epidemiology is an emerging tool to monitor COVID-19 infection levels by measuring the concentration of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA in wastewater. There remains a need improve wastewater extraction methods’ sensitivity, speed, and reduce reliance on often expensive commercial reagents make wastewater-based more accessible. We present kit-free method, titled “Sewage, Salt, Silica SARS-CoV-2” (4S), that employs abundant affordable...
Reductions in nonresidential water demand during the COVID-19 pandemic highlighted importance of understanding how age impacts drinking quality and microbiota piped distribution systems. Using benchtop model systems, we aimed to characterize elevated on bulk pipe wall biofilms. Five replicate constant-flow reactors were fed with municipal chloraminated tap for 6 months prior building closures 7 after. After closures, chloramine levels entering dropped; reactor biofilms mean cell counts ATP...
This protocol describes the procedure of "4S" (Sewage, Salt, Silica and SARS-CoV-2) method for SARS-CoV-2 RNA extraction from wastewater. Offering a highly efficient, modular economical alternative to existing wastewater purification methods, this lowers barrier entry wastewater-based epidemiology. is intended be carried out in BSL2+ laboratory space, with precautions when handling raw samples.
Abstract In spring 2020, reduced water demand was an unintended consequence of COVID-19 pandemic-related building closures. Concerns arose that contaminants associated with stagnation, such as Legionella pneumophila , could become prevalent. To investigate this potential public health risk, samples from 26 reduced-occupancy buildings across 11 cities in the United States, Canada, and Switzerland were analyzed for L. using liquid culture (Legiolert, n=258) DNA-based methods (qPCR/ddPCR,...
A transition from a conventional drinking water system to direct potable reuse was simulated in pilot-scale pipe loops. To our knowledge, this study is the first investigate microbial impacts of treated augmentation.
ABSTRACT Wastewater surveillance for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA can be integrated with COVID-19 case data to inform timely pandemic response. However, more research is needed apply and develop systematic methods interpret the true SARS-CoV-2 signal from noise introduced in wastewater samples (e.g., sewer conditions, sampling extraction methods, etc.). In this study, raw was collected weekly five sewersheds one residential facility, concentrations were...
Abstract Wastewater-based epidemiology is an important tool for monitoring SARS-CoV-2 and other molecular targets in populations, using wastewater as a pooled sample. We compared the sensitivity, susceptibility to inhibition, quantification of reverse transcription quantitative PCR (RT-qPCR), microfluidic well digital RT-PCR (RT-dPCR), droplet (RT-ddPCR) measurements (N1 gene target) Pepper Mild Mottle Virus (PMMoV) RNA 40 extracts. All three methods were highly sensitive, but appeared less...
The fates of viruses, bacteria, and antibiotic resistance genes during advanced wastewater treatment are important to assess for implementation potable reuse systems. Here, a full-scale demonstration facility (ozone, biological activated carbon filtration, micro/ultrafiltration, reverse osmosis, oxidation) was sampled over three months. Atypically, no disinfectant residual applied before the microfiltration step. Microbial cell concentrations viability were assessed via flow cytometry...
The following protocol describes the reverse transcription quantitative polymerase chain reaction (RT-qPCR) methods that we have used at University of California, Berkeley in Nelson Lab and COVID-WEB (covid-web.org) for downstream analysis extracted wastewater samples purpose SARS-CoV-2 surveillance. We been successfully using this paired with Sewage, Salt, Silica, (4S) method. are including multiple assays throughout project, although not all them may be active use. This method need to...
This protocol describes the procedure of "4S" (Sewage, Salt, Silica and SARS-CoV-2) method for SARS-CoV-2 RNA extraction from wastewater. Offering a highly efficient, modular economical alternative to existing wastewater purification methods, this lowers barrier entry wastewater-based epidemiology. is intended be carried out in BSL2+ laboratory space, with precautions when handling raw samples.
Abstract In 1879, as the Argentine army prepared a military campaign against Indigenous groups in Pampas and Patagonia, national government created an colony called Colonia General Conesa. Conesa's inhabitants were expected to build homes cultivate crops under watch become “useful” citizens process. This short-lived assimilationist project, which abandoned three years later, illuminates rapidly shifting dynamics of settler colonial ideology. Although officials initially saw Conesa expedient...
Abstract Wastewater-based testing for SARS-CoV-2 is a novel tool public health monitoring, but additional laboratory capacity needed to provide routine monitoring at all locations where it has the potential be useful. Few standardization practices wastewater analysis currently exist, and quality assurance/quality control procedures may vary across laboratories. Alongside counterparts many academic institutions, we built out of University California, Berkeley. Here, detail our group’s...
The following protocol describes the "4S" (Sewage, Salt, Silica and SARS-CoV-2) workflow applied to using dry silica powder as an RNA-binding matrix instead of spin columns. This offers even more economical alternative, requiring only centrifugation extract RNA from wastewater. procedure is intended be carried out in a BSL2+ laboratory space, with precautions when handling raw wastewater samples.
The following protocol describes the reverse transcription quantitative polymerase chain reaction (RT-qPCR) methods that we have used at University of California, Berkeley in Nelson Lab and COVID-WEB (covid-web.org) for downstream analysis extracted wastewater samples purpose SARS-CoV-2 surveillance. We been successfully using this paired with Sewage, Salt, Silica, (4S) method. are including multiple assays throughout project, although not all them may be active use. This method need to...
This protocol describes the procedure of "4S" (Sewage, Salt, Silica and SARS-CoV-2) method for SARS-CoV-2 RNA extraction from wastewater. Offering a highly efficient, modular economical alternative to existing wastewater purification methods, this lowers barrier entry wastewater-based epidemiology. is intended be carried out in BSL2+ laboratory space, with precautions when handling raw samples.